mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,546,019 | 0 | T | A | 25.6% | 224.9 / 23.2 | 118 | M133K (ATG→AAG) | nfuA | Fe/S biogenesis protein, putative scaffold/chaperone protein |
| * | NC_000913 | 3,546,010 | 0 | T | G | 25.0% | 191.3 / 14.4 | 108 | V130G (GTT→GGT) | nfuA | Fe/S biogenesis protein, putative scaffold/chaperone protein |
| * | NC_000913 | 2,394,768 | 0 | T | C | 21.1% | 176.4 / 22.2 | 91 | T93A (ACT→GCT) | nuoL | NADH:ubiquinone oxidoreductase, membrane subunit L |
| Marginal new junction evidence (lowest skew 10 of 72 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 4542683 = | 88 (0.820) | 8 (0.080) | 8/278 | 13.6 | 7.9% | intergenic (+49/‑433) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | 4542997 = | 103 (1.020) | intergenic (+363/‑119) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | = 1066842 | 110 (1.020) | 5 (0.050) | 5/276 | 15.6 | 4.7% | intergenic (+16/+22) | agp/yccJ | glucose‑1‑phosphatase/inositol phosphatase/uncharacterized protein |
| ? | NC_000913 | = 1066847 | 102 (1.020) | intergenic (+21/+17) | agp/yccJ | glucose‑1‑phosphatase/inositol phosphatase/uncharacterized protein | |||||
| * | ? | NC_000913 | = 2007656 | 110 (1.020) | 5 (0.050) | 5/280 | 15.8 | 4.5% | intergenic (+13/+21) | amyA/yedD | cytoplasmic alpha‑amylase/lipoprotein |
| ? | NC_000913 | = 2007661 | 110 (1.080) | intergenic (+18/+16) | amyA/yedD | cytoplasmic alpha‑amylase/lipoprotein | |||||
| * | ? | NC_000913 | = 4094700 | NA (NA) | 3 (0.030) +24 bp |
3/248 | 16.1 | NA | noncoding (386/402 nt) | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences | REP299 (repetitive extragenic palindromic) element; contains 9 REP sequences |
| ? | NC_000913 | = 4094717 | NA (NA) | intergenic (‑446/+5) | rhaD/rhaA | rhamnulose‑1‑phosphate aldolase/L‑rhamnose isomerase | |||||
| * | ? | NC_000913 | 2042116 = | 112 (1.040) | 4 (0.040) | 4/276 | 16.4 | 3.7% | intergenic (+91/‑252) | zinT/yodB | zinc and cadmium binding protein, periplasmic/cytochrome b561 homolog |
| ? | NC_000913 | 2042149 = | 105 (1.050) | intergenic (+124/‑219) | zinT/yodB | zinc and cadmium binding protein, periplasmic/cytochrome b561 homolog | |||||
| * | ? | NC_000913 | 710904 = | NA (NA) | 4 (0.040) | 4/276 | 16.4 | NA | intergenic (‑179/+31) | uof/fldA | ryhB‑regulated fur leader peptide/flavodoxin 1 |
| ? | NC_000913 | 710928 = | NA (NA) | noncoding (21/33 nt) | REP64 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP64 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 182317 = | 105 (0.980) | 4 (0.040) | 4/276 | 16.4 | 3.9% | intergenic (+9/‑146) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator |
| ? | NC_000913 | 182345 = | 99 (0.990) | intergenic (+37/‑118) | degP/cdaR | serine endoprotease (protease Do), membrane‑associated/carbohydrate diacid regulon transcriptional regulator; autoregulator | |||||
| * | ? | NC_000913 | = 4542691 | 89 (0.830) | 4 (0.040) | 4/278 | 16.5 | 4.1% | intergenic (+57/‑425) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) |
| ? | NC_000913 | = 4542987 | 103 (1.020) | intergenic (+353/‑129) | fimE/fimA | tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin) | |||||
| * | ? | NC_000913 | 4136023 = | 107 (1.000) | 5 (0.050) | 4/278 | 16.5 | 4.6% | intergenic (+9/‑84) | katG/yijE | catalase‑peroxidase HPI, heme b‑containing/EamA‑like transporter family protein |
| ? | NC_000913 | 4136057 = | 107 (1.060) | intergenic (+43/‑50) | katG/yijE | catalase‑peroxidase HPI, heme b‑containing/EamA‑like transporter family protein | |||||
| * | ? | NC_000913 | 3915504 = | 106 (0.990) | 4 (0.040) | 4/278 | 16.5 | 3.9% | intergenic (‑305/+48) | glmU/atpC | fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase/F1 sector of membrane‑bound ATP synthase, epsilon subunit |
| ? | NC_000913 | 3915534 = | 99 (0.980) | intergenic (‑335/+18) | glmU/atpC | fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase/F1 sector of membrane‑bound ATP synthase, epsilon subunit | |||||